Does an alpha order physically stop the werewolves from breaking it. Like it Jacob literally unable to say he is a werewolf یا is he just not allowed to???

Yes, the Alpha order makes a werewolf physically unable to defy the order. The only exceptions would be if the order went against an imprint in some way, for example if the order would harm that imprint یا if they were ordered to lie to the imprintee, and of course if the werewolf being ordered could fight against the order سے طرف کی claiming Alpha status himself (but that's basically only Jacob).